Locus 908

Sequence ID 3L_DroMel_CAF1
Location 2,760,737 – 2,760,872
Length 135
Max. P 0.999996
window1396 window1397 window1398 window1399

overview

Window 6

Location 2,760,737 – 2,760,833
Length 96
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 66.96
Mean single sequence MFE -35.37
Consensus MFE -27.41
Energy contribution -26.53
Covariance contribution -0.88
Combinations/Pair 1.26
Mean z-score -1.47
Structure conservation index 0.77
SVM decision value 3.08
SVM RNA-class probability 0.998368
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2760737 96 + 23771897
----------------GUUUAGACGAAACCUGUUGCUCAGUACGAGCGCCAUGGAAAGUAGUAUUUACUUUUCCAUGGCGGAGCCAACGGCUUCUGCUCCACCGGCGCCAC-C-------
----------------..............((.((((..((..((((((((((((((((((...)))).))))))))))((((((...)))))).)))).)).)))).)).-.------- ( -34.30)
>DroSim_CAF1 116358 96 + 1
----------------GUUCAAAAGAAACCUGCUGCUCAGUACGAGUGCCAUGGAGAGCAGCAUCUACUUUUCCAUGGCGGAGCCAACGGUUUCUGCUCCACCGGCGCCAC-C-------
----------------.......(((((((.(((((((.....))))(((((((((((..........)))))))))))..)))....)))))))((.((...)).))...-.------- ( -31.20)
>DroAna_CAF1 114227 120 + 1
AGGAGGACGAAGACCAGUUCCGCCGCAAUCUGCUGCUGAGCACCAGCACCAUGGAGAGCAGCAUAUACUUCUCCAUGGCAGAGCCGACAACGCCUGCUCCGGCAGCUGCUCCCAGCCCGA
.((((...........((((.((.((.....)).)).))))..((((.((((((((((..........))))))))))....((((.............)))).))))))))........ ( -40.62)
>consensus
________________GUUCAGACGAAACCUGCUGCUCAGUACGAGCGCCAUGGAGAGCAGCAUAUACUUUUCCAUGGCGGAGCCAACGGCUUCUGCUCCACCGGCGCCAC_C_______
...............................(((((((.....))))(((((((((((..........)))))))))))(((((...........)))))...))).............. (-27.41 = -26.53 +  -0.88)

alignment

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secondary structure

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dotplot

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Window 7

Location 2,760,737 – 2,760,833
Length 96
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 66.96
Mean single sequence MFE -44.10
Consensus MFE -33.14
Energy contribution -31.60
Covariance contribution -1.54
Combinations/Pair 1.35
Mean z-score -2.39
Structure conservation index 0.75
SVM decision value 6.09
SVM RNA-class probability 0.999996
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2760737 96 - 23771897
-------G-GUGGCGCCGGUGGAGCAGAAGCCGUUGGCUCCGCCAUGGAAAAGUAAAUACUACUUUCCAUGGCGCUCGUACUGAGCAACAGGUUUCGUCUAAAC----------------
-------.-((.((..(((((((((.(.((((...)))).)((((((((((.(((.....))))))))))))))))).))))).)).))...............---------------- ( -38.00)
>DroSim_CAF1 116358 96 - 1
-------G-GUGGCGCCGGUGGAGCAGAAACCGUUGGCUCCGCCAUGGAAAAGUAGAUGCUGCUCUCCAUGGCACUCGUACUGAGCAGCAGGUUUCUUUUGAAC----------------
-------(-((((.(((..(((........)))..))).)))))....(((((....((((((((...(((.....)))...)))))))).....)))))....---------------- ( -38.30)
>DroAna_CAF1 114227 120 - 1
UCGGGCUGGGAGCAGCUGCCGGAGCAGGCGUUGUCGGCUCUGCCAUGGAGAAGUAUAUGCUGCUCUCCAUGGUGCUGGUGCUCAGCAGCAGAUUGCGGCGGAACUGGUCUUCGUCCUCCU
..((((..(((.(((((((((((((.(((...))).)))).((((((((((.(((.....))))))))))))).(((.(((...))).)))....))))))..))).)))..)))).... ( -56.00)
>consensus
_______G_GUGGCGCCGGUGGAGCAGAAGCCGUUGGCUCCGCCAUGGAAAAGUAAAUGCUGCUCUCCAUGGCGCUCGUACUGAGCAGCAGGUUUCGUCUGAAC________________
...........((.(((.(((((((.((.....)).)))))((((((((((.(((.....)))))))))))))((((.....)))).)).))).))........................ (-33.14 = -31.60 +  -1.54)

alignment

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secondary structure

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dotplot

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Window 8

Location 2,760,761 – 2,760,872
Length 111
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 76.35
Mean single sequence MFE -43.50
Consensus MFE -28.47
Energy contribution -28.37
Covariance contribution -0.10
Combinations/Pair 1.24
Mean z-score -2.36
Structure conservation index 0.65
SVM decision value 2.47
SVM RNA-class probability 0.994382
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2760761 111 + 23771897
UACGAGCGCCAUGGAAAGUAGUAUUUACUUUUCCAUGGCGGAGCCAACGGCUUCUGCUCCACCGGCGCCAC-C--------GGUGCGUAAUGAAGCCUUCUCCUUUGAGUUGUUUGUAGA
(((((((((((((((((((((...)))).))))))))))((((.....((((((....(((((((.....)-)--------)))).)....))))))..))))........))))))).. ( -49.50)
>DroSim_CAF1 116382 111 + 1
UACGAGUGCCAUGGAGAGCAGCAUCUACUUUUCCAUGGCGGAGCCAACGGUUUCUGCUCCACCGGCGCCAC-C--------AGUGCGGAAUGAAGCCUUCUCCUUUGAGUUGUUUGUGGA
((((((.(((((((((((..........)))))))))))((((.....((((((..((.(((.((.....)-)--------.))).))...))))))..)))).........)))))).. ( -36.60)
>DroAna_CAF1 114267 120 + 1
CACCAGCACCAUGGAGAGCAGCAUAUACUUCUCCAUGGCAGAGCCGACAACGCCUGCUCCGGCAGCUGCUCCCAGCCCGAAGGUGAGCAGCGAAGCCUUCUCCUUCGAGCUGUUCGUCGA
.....((.((((((((((..........))))))))))....))((((((((...((((.....(((((((((........)).)))))))((((.......)))))))))))).)))). ( -44.40)
>consensus
UACGAGCGCCAUGGAGAGCAGCAUAUACUUUUCCAUGGCGGAGCCAACGGCUUCUGCUCCACCGGCGCCAC_C________GGUGCGCAAUGAAGCCUUCUCCUUUGAGUUGUUUGUAGA
((((((((((((((((((..........)))))))))))..((((((.((.....(((.((...(((.(((...........))))))..)).))).....)).))).)))))))))).. (-28.47 = -28.37 +  -0.10)

alignment

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secondary structure

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dotplot

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Window 9

Location 2,760,761 – 2,760,872
Length 111
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 76.35
Mean single sequence MFE -46.57
Consensus MFE -33.12
Energy contribution -31.59
Covariance contribution -1.54
Combinations/Pair 1.30
Mean z-score -2.75
Structure conservation index 0.71
SVM decision value 3.75
SVM RNA-class probability 0.999583
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2760761 111 - 23771897
UCUACAAACAACUCAAAGGAGAAGGCUUCAUUACGCACC--------G-GUGGCGCCGGUGGAGCAGAAGCCGUUGGCUCCGCCAUGGAAAAGUAAAUACUACUUUCCAUGGCGCUCGUA
..(((............((((..((((((....(.((((--------(-(.....)))))))....)))))).....))))((((((((((.(((.....)))))))))))))....))) ( -46.10)
>DroSim_CAF1 116382 111 - 1
UCCACAAACAACUCAAAGGAGAAGGCUUCAUUCCGCACU--------G-GUGGCGCCGGUGGAGCAGAAACCGUUGGCUCCGCCAUGGAAAAGUAGAUGCUGCUCUCCAUGGCACUCGUA
.......((........((((..((.(((.((((..(((--------(-(.....)))))))))..))).)).....))))((((((((..(((((...))))).))))))))....)). ( -37.40)
>DroAna_CAF1 114267 120 - 1
UCGACGAACAGCUCGAAGGAGAAGGCUUCGCUGCUCACCUUCGGGCUGGGAGCAGCUGCCGGAGCAGGCGUUGUCGGCUCUGCCAUGGAGAAGUAUAUGCUGCUCUCCAUGGUGCUGGUG
........(((((((((((.((.(((...)))..)).)))))))))))..(.((((....(((((.(((...))).)))))((((((((((.(((.....))))))))))))))))).). ( -56.20)
>consensus
UCCACAAACAACUCAAAGGAGAAGGCUUCAUUACGCACC________G_GUGGCGCCGGUGGAGCAGAAGCCGUUGGCUCCGCCAUGGAAAAGUAAAUGCUGCUCUCCAUGGCGCUCGUA
...........(((....)))..(((......((((.............)))).)))...(((((.((.....)).)))))((((((((((.(((.....)))))))))))))....... (-33.12 = -31.59 +  -1.54)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:54:10 2006